ArticlePloS one2013
A panel of ancestry informative markers for the complex five-way admixed South African coloured population.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers, 1 of them a synthesis that pooled it.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
42 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Pooled it
- Genetic ancestry in relation to the metabolic response to a US versus traditional Mexican diet: a randomized crossover feeding trial among women of Mexican descent.European journal of clinical nutrition · 2017Trial
- Recovering the precolonial population structure of Khoe-San descendant populations.Science advances · 2026Article
- Association of OPG, TNF-α, and IL-1B Gene Variants With Periodontitis in a South African Population.International dental journal · 2026Observational
- Integrated genetic and geographic ancestry prediction via large-scale genomic data and machine learning.Human genomics · 2025Article
- Recovering the pre-colonial population structure of Khoe-San descendant populations.bioRxiv : the preprint server for biology · 2025Article
- Population affinity estimation in forensic anthropology: a South African perspective.International journal of legal medicine · 2025Review
- Bioinformatic insights into five Chinese population substructures inferred from the East Asian-specific AISNP panel.BMC genomics · 2025Article
- Article
- The immunogenetics of tuberculosis (TB) susceptibility.Immunogenetics · 2023Review
- Evolutionary Genetics and Admixture in African Populations.Genome biology and evolution · 2023Review
- A Pipeline for Phasing and Genotype Imputation on Mixed Human Data (Parents-Offspring Trios and Unrelated Subjects) by Reviewing Current Methods and Software.Life (Basel, Switzerland) · 2022Review
- Article
- Prevalence of anti-SARS-CoV-2 antibodies among blood donors in Northern Cape, KwaZulu-Natal, Eastern Cape, and Free State provinces of South Africa in January 2021.Research square · 2021Article
- Prospective avenues for human population genomics and disease mapping in southern Africa.Molecular genetics and genomics : MGG · 2020Review
- A regulatory variant in the C1Q gene cluster is associated with tuberculosis susceptibility and C1qA plasma levels in a South African population.Immunogenetics · 2020Article
- Putting RFMix and ADMIXTURE to the test in a complex admixed population.BMC genetics · 2020Article
- An ancestry informative marker panel design for individual ancestry estimation of Hispanic population using whole exome sequencing data.BMC genomics · 2019Article
- Runs of homozygosity in sub-Saharan African populations provide insights into complex demographic histories.Human genetics · 2019Article
- Genetic Affinities among Southern Africa Hunter-Gatherers and the Impact of Admixing Farmer and Herder Populations.Molecular biology and evolution · 2019Article
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Authors and funding
11 authors.
Funding
Abstract
Admixture is a well known confounder in genetic association studies. If genome-wide data is not available, as would be the case for candidate gene studies, ancestry informative markers (AIMs) are required in order to adjust for admixture. The predominant population group in the Western Cape, South Africa, is the admixed group known as the South African Coloured (SAC). A small set of AIMs that is optimized to distinguish between the five source populations of this population (African San, African non-San, European, South Asian, and East Asian) will enable researchers to cost-effectively reduce false-positive findings resulting from ignoring admixture in genetic association studies of the population. Using genome-wide data to find SNPs with large allele frequency differences between the source populations of the SAC, as quantified by Rosenberg et. al's In-statistic, we developed a panel of AIMs by experimenting with various selection strategies. Subsets of different sizes were evaluated by measuring the correlation between ancestry proportions estimated by each AIM subset with ancestry proportions estimated using genome-wide data. We show that a panel of 96 AIMs can be used to assess ancestry proportions and to adjust for the confounding effect of the complex five-way admixture that occurred in the South African Coloured population.
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